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Xenopus_tropicalis_v9.1

Organism name:
Xenopus tropicalis (tropical clawed frog)
Infraspecific name:
Strain: Nigerian
Sex:
female
BioSample:
SAMN00000117
BioProject:
PRJNA12348
Submitter:
DOE Joint Genome Institute
Date:
2016/07/13
Synonyms:
xenTro9
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_000004195.3 (latest)
RefSeq assembly accession:
GCF_000004195.3 (latest)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in RefSeq: chromosome MT (in non-nuclear assembly-unit)
  • Data displayed for RefSeq version
WGS Project:
AAMC03
Assembly method:
Meraculous v. May-2013
Genome coverage:
7.6x
Sequencing technology:
Illumina HiSeq 2000

IDs: 768701 [UID] 3341798 [GenBank] 3369638 [RefSeq]

See Genome Information for Xenopus tropicalis

History (Show revision history)

Global statistics

Total sequence length1,440,398,454
Total assembly gap length70,533,089
Gaps between scaffolds0
Number of scaffolds6,822
Scaffold N50135,134,832
Scaffold L505
Number of contigs61,330
Contig N5071,041
Contig L505,552
Total number of chromosomes and plasmids11
Number of component sequences (WGS or clone)61,330

Supplemental Content

PubMed articles for this assembly

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Global assembly definition

Download the full sequence report
Click on the table row to see sequence details in the table to the right
Assembly Unit Name
Primary Assembly
non-nuclear
Assembly Unit: Primary Assembly (GCF_000004205.3)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM004443.1=NC_030677.10
Chromosome 2CM004444.1=NC_030678.10
Chromosome 3CM004445.1=NC_030679.10
Chromosome 4CM004446.1=NC_030680.10
Chromosome 5CM004447.1=NC_030681.10
Chromosome 6CM004448.1=NC_030682.10
Chromosome 7CM004449.1=NC_030683.10
Chromosome 8CM004450.1=NC_030684.10
Chromosome 9CM004451.1=NC_030685.10
Chromosome 10CM004452.1=NC_030686.10
unplacedn/an/an/a6,811

Assembly statistics

MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
All1,440,380,8446,8211,369,847,755135,134,83254,5080
Chromosome 1194,866,7631188,801,249194,866,7635,3550
Chromosome 2170,201,5131164,590,001170,201,5134,5890
Chromosome 3137,218,7011132,773,799137,218,7013,6830
Chromosome 4133,473,3411129,227,785133,473,3413,5860
Chromosome 5146,437,3841140,910,671146,437,3844,6420
Chromosome 6135,134,8321130,830,909135,134,8323,6620
Chromosome 7117,177,9431112,000,942117,177,9434,5120
Chromosome 8117,616,0461113,103,525117,616,0463,4600
Chromosome 980,437,102177,195,06080,437,1022,4960
Chromosome 1039,945,785137,630,75539,945,7851,6320
unplaced167,871,4346,811142,783,059242,48416,8910
MoleculeTotal
Length
Mitochondrion MT17,610
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